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Caper [ Drosophila melanogaster (fruit fly) ]

Gene ID: 33989, updated on 11-Apr-2024

Summary

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Official Symbol
Caperprovided by FlyBase
Primary source
FLYBASE:FBgn0031883
Locus tag
Dmel_CG11266
See related
AllianceGenome:FB:FBgn0031883
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Drosophila melanogaster
Lineage
Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
Also known as
CAPER; CC1.3; cg11266; CG11266; Dmel\CG11266; HCC1; igru
Summary
Predicted to enable mRNA binding activity. Involved in regulation of alternative mRNA splicing, via spliceosome. Located in nucleoplasm. Part of catalytic step 2 spliceosome and precatalytic spliceosome. Is expressed in adult brain cell body rind. Orthologous to several human genes including RBM39 (RNA binding motif protein 39). [provided by Alliance of Genome Resources, Apr 2022]
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Genomic context

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Location:
27D5-27D5; 2-24 cM
Exon count:
8
Annotation release Status Assembly Chr Location
Release 6.54 current Release 6 plus ISO1 MT (GCF_000001215.4) 2L NT_033779.5 (7032721..7037878)
Release 5.57 previous assembly Release 5 (GCF_000001215.2) 2L NT_033779.4 (7032721..7037878)

Chromosome 2L - NT_033779.5Genomic Context describing neighboring genes Neighboring gene Mitochondrial Magnesium Exporter 1 Neighboring gene Rab30 Neighboring gene milton Neighboring gene Menin 1 Neighboring gene Male specific transcript 27D Neighboring gene Suppressor of exocyst mutations 1 Neighboring gene Nuf2

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Roles for the RNA-Binding Protein Caper in Reproductive Output in Drosophila melanogaster. Tixtha EJ, et al. J Dev Biol, 2022 Dec 23. PMID 36648904, Free PMC Article
  2. The RNA-binding protein caper is required for sensory neuron development in Drosophila melanogaster. Olesnicky EC, et al. Dev Dyn, 2017 Aug. PMID 28543982, Free PMC Article
  3. The conserved alternative splicing factor caper regulates neuromuscular phenotypes during development and aging. Titus MB, et al. Dev Biol, 2021 May. PMID 33508255, Free PMC Article
  4. Coupling of PARP1-mediated chromatin structural changes to transcriptional RNA polymerase II elongation and cotranscriptional splicing. Matveeva EA, et al. Epigenetics Chromatin, 2019 Feb 18. PMID 30777121, Free PMC Article
  5. U2AF homology motifs: protein recognition in the RRM world. Kielkopf CL, et al. Genes Dev, 2004 Jul 1. PMID 15231733, Free PMC Article

See all (56) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The conserved alternative splicing factor caper regulates neuromuscular phenotypes during development and aging.
    Title: The conserved alternative splicing factor caper regulates neuromuscular phenotypes during development and aging.
Submit: New GeneRIF Correction

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Homology

Gene Ontology Provided by FlyBase

Function Evidence Code Pubs
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables U1 snRNP binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables mRNA binding ISS
Inferred from Sequence or Structural Similarity
more info
 PubMed 
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in mRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in mRNA splicing, via spliceosome IC
Inferred by Curator
more info
 PubMed 
involved_in regulation of alternative mRNA splicing, via spliceosome HMP PubMed 
involved_in regulation of alternative mRNA splicing, via spliceosome IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
part_of catalytic step 2 spliceosome HDA PubMed 
located_in nucleoplasm HDA PubMed 
located_in nucleus IC
Inferred by Curator
more info
 PubMed 
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
part_of precatalytic spliceosome HDA PubMed 

General protein information

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Preferred Names
caper
Names
CG11266-PA
CG11266-PB
CG11266-PH
CG11266-PI
CG11266-PJ
CG11266-PK
CG11266-PL
Caper-PA
Caper-PB
Caper-PH
Caper-PI
Caper-PJ
Caper-PK
Caper-PL
inselgruppe

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

  1. NT_033779.5 Reference assembly

    Range
    7032721..7037878
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001298774.1 → NP_001285703.1  caper, isoform K [Drosophila melanogaster]

    See identical proteins and their annotated locations for NP_001285703.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    X2J523

  2. NM_135251.4 → NP_609095.1  caper, isoform B [Drosophila melanogaster]

    See identical proteins and their annotated locations for NP_609095.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q9VM49
    Related
    FBpp0088579
    Conserved Domains (4) summary
    cd12283
    Location:238 → 310
    RRM1_RBM39_like; RNA recognition motif 1 in vertebrate RNA-binding protein 39 (RBM39) and similar proteins
    cd12284
    Location:337 → 409
    RRM2_RBM23_RBM39; RNA recognition motif 2 in vertebrate RNA-binding protein RBM23, RBM39 and similar proteins
    cd12285
    Location:483 → 567
    RRM3_RBM39_like; RNA recognition motif 3 in vertebrate RNA-binding protein 39 (RBM39) and similar proteins
    pfam15519
    Location:425 → 500
    RBM39linker; linker between RRM2 and RRM3 domains in RBM39 protein

  3. NM_001298771.1 → NP_001285700.1  caper, isoform H [Drosophila melanogaster]

    See identical proteins and their annotated locations for NP_001285700.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    X2JDG0

  4. NM_001298772.1 → NP_001285701.1  caper, isoform I [Drosophila melanogaster]

    See identical proteins and their annotated locations for NP_001285701.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    X2JDG0

  5. NM_001298775.1 → NP_001285704.1  caper, isoform L [Drosophila melanogaster]

    See identical proteins and their annotated locations for NP_001285704.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    X2J523

  6. NM_164730.2 → NP_723243.1  caper, isoform A [Drosophila melanogaster]

    See identical proteins and their annotated locations for NP_723243.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q9VM49
    Related
    FBpp0088583
    Conserved Domains (4) summary
    cd12283
    Location:238 → 310
    RRM1_RBM39_like; RNA recognition motif 1 in vertebrate RNA-binding protein 39 (RBM39) and similar proteins
    cd12284
    Location:337 → 409
    RRM2_RBM23_RBM39; RNA recognition motif 2 in vertebrate RNA-binding protein RBM23, RBM39 and similar proteins
    cd12285
    Location:483 → 567
    RRM3_RBM39_like; RNA recognition motif 3 in vertebrate RNA-binding protein 39 (RBM39) and similar proteins
    pfam15519
    Location:425 → 500
    RBM39linker; linker between RRM2 and RRM3 domains in RBM39 protein

  7. NM_001298773.1 → NP_001285702.1  caper, isoform J [Drosophila melanogaster]

    See identical proteins and their annotated locations for NP_001285702.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    X2J9R6
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9VM49 Q9VM49
X2J523 X2J523
X2J9R6 X2J9R6
X2JDG0 X2JDG0

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